5bpd_ABCD : 3D-footprint complex

structure name	STRUCTURE OF TRMBL2, AN ARCHAEAL CHROMATIN PROTEIN, SHOWS A NOVEL MODE OF DNA BINDING.
reference	Diederichs et al. J.Mol.Biol. 427 3216 2015
source	PYROCOCCUS FURIOSUS
experiment	X-ray (resolution=2.40, R-factor=?)
structural superfamily	"Winged helix" DNA-binding domain;Phospholipase D/nuclease;
reference complex	5bpd_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5bpd_A interface=18,44,46,47,49,50, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYDvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpkygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaekv > 5bpd_B interface=18,44,46,47,49,50, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYDvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpkygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaek > 5bpd_C interface=18,44,46,47,49, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYdvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaekv > 5bpd_D interface=19,45,47,48,50, mskdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYdvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietekygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekae
interface signature	YPPRYD/YPPRYD/YPPRY/YPPRY

Estimated binding specificities ?

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# IC=12.103 IC/col=0.637 n_of_columns=19

specificity:

A |  85   5  96   1  10  96  24  24  24  24  24  24  24   0   5  82   0  74   3
C |   3   3   0   3  67   0  24  24  24  24  24  24  24   0   3   0   0   3   3
G |   5   3   0   0   3   0  24  24  24  24  24  24  24   0  85  14   0  16   5
T |   3  85   0  92  16   0  24  24  24  24  24  24  24  96   3   0  96   3  85

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updated Mon Jan 5 14:47:19 2026